Locus 3842

Sequence ID 3R_DroMel_CAF1
Location 10,480,397 – 10,480,507
Length 110
Max. P 0.934346
window6154 window6155

overview

Window 4

Location 10,480,397 – 10,480,490
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 94.62
Mean single sequence MFE -21.23
Consensus MFE -18.25
Energy contribution -18.38
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -2.04
Structure conservation index 0.86
SVM decision value 0.79
SVM RNA-class probability 0.851420
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10480397 93 - 27905053
AACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCAUCCCACCCCUCGCAGCGGCGGCACACCCACAAACCAC
...(((((((((...(.....)(((((.(......).))))).......))))))............((....)))))............... ( -22.00)
>DroSec_CAF1 26550 93 - 1
AACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCACCCCACCCCUCGCAGCGGCGGCACACCCACAAACCAC
...(((((((((...(.....)(((((.(......).))))).......))))))............((....)))))............... ( -22.00)
>DroSim_CAF1 27224 93 - 1
AACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCACCCCACCCCUCGCAGCGGCGGCACACCCACAAACCAC
...(((((((((...(.....)(((((.(......).))))).......))))))............((....)))))............... ( -22.00)
>DroEre_CAF1 26695 90 - 1
AACGCCGGCAACAGCGAUUCUCGAGUGCUCUUCCCGCCACUCCCCAACAGUUUCUGCUCCACCCCUCGCA---CCGGCACACCCACAAACCAC
...(((((.....((((.....((((((.......).)))))......(((....))).......)))).---)))))............... ( -18.90)
>consensus
AACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCACCCCACCCCUCGCAGCGGCGGCACACCCACAAACCAC
...(((((((((...(.....)(((((.(......).))))).......))))))............((....)))))............... (-18.25 = -18.38 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,480,410 – 10,480,507
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 93.38
Mean single sequence MFE -23.75
Consensus MFE -18.98
Energy contribution -19.46
Covariance contribution 0.48
Combinations/Pair 1.10
Mean z-score -2.06
Structure conservation index 0.80
SVM decision value 1.24
SVM RNA-class probability 0.934346
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10480410 97 - 27905053
AACAGAGAAAUCAUAAAAACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCAUCCCACCCCUCGCAGCGGCGGCAC
....((....))........(((((((((...(.....)(((((.(......).))))).......))))))............((....))))).. ( -23.80)
>DroSec_CAF1 26563 97 - 1
AACAGAGAAAUCAUAAAAACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCACCCCACCCCUCGCAGCGGCGGCAC
....((....))........(((((((((...(.....)(((((.(......).))))).......))))))............((....))))).. ( -23.80)
>DroSim_CAF1 27237 97 - 1
AACAGAGAAAUCAUAAAAACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCACCCCACCCCUCGCAGCGGCGGCAC
....((....))........(((((((((...(.....)(((((.(......).))))).......))))))............((....))))).. ( -23.80)
>DroEre_CAF1 26708 94 - 1
AACAGAGAAAUCAUAAAAACGCCGGCAACAGCGAUUCUCGAGUGCUCUUCCCGCCACUCCCCAACAGUUUCUGCUCCACCCCUCGCA---CCGGCAC
....((....))........(((((.....((((.....((((((.......).)))))......(((....))).......)))).---))))).. ( -20.70)
>DroYak_CAF1 26849 94 - 1
AACAGAGAAAUCAUAAAAACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAAUCGUUGCCACCCCACCCCUCACG---CCGGCAC
....((....))........((((((..((((((((...(((((.(......).)))))...))))))))................)---))))).. ( -26.67)
>consensus
AACAGAGAAAUCAUAAAAACGCCGGCAACAGCGAUUCUCGAGUGCCCUUCCCGCCACUCCCCAACAGUUGCCACCCCACCCCUCGCAGCGGCGGCAC
....((....))........(((((((((...(.....)(((((.(......).))))).......))))))............((....))))).. (-18.98 = -19.46 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:24 2006